1PF5 Structural Genomics, Unknown Function date May 23, 2003
title Structural Genomics, Protein Yjgh
authors R.Zhang, A.Joachimiak, A.Edwards, A.Savchenko, L.Xu, Midwest Cent Structural Genomics (Mcsg)
compound source
Molecule: Hypothetical Protein Yjgh
Chain: A
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Yjgh
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Star
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b
symmetry Space Group: I 21 3
R_factor 0.196 R_Free 0.218
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.737 127.737 127.737 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand HG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (27 Kb) [Save to disk]
  • Biological Unit Coordinates (1pf5.pdb1.gz) 65 Kb
  • LPC: Ligand-Protein Contacts for 1PF5
  • CSU: Contacts of Structural Units for 1PF5
  • Likely Quarternary Molecular Structure file(s) for 1PF5
  • Structure Factors (178 Kb)
  • Retrieve 1PF5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PF5 from S2C, [Save to disk]
  • Re-refined 1pf5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PF5 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1PF5
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1PF5, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pf5a_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pf5_A] [1pf5]
  • SWISS-PROT database: [P39332]
  • Domain organization of [YJGH_ECOLI] by SWISSPFAM
  • Other resources with information on 1PF5
  • Community annotation for 1PF5 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science